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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $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' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ), 'gf_id' => 'HOM05D000987', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D000987' ), 'data_identifier' => 'HOM05D000987', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D000987', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '610', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p04920' => 'bna', 'A01p35800' => 'bna', 'A02p21120' => 'bna', 'A05p30960' => 'bna', 'A06p17520' => 'bna', 'A08p17680' => 'bna', 'A08p28930' => 'bna', 'A08p34870' => 'bna', 'A09p19270' => 'bna', 'A09p65630' => 'bna', 'Aa31LG2G11720' => 'aar', 'Aa31LG4G7170' => 'aar', 'Aa31LG7G5400' => 'aar', 'Aa31LG8G5490' => 'aar', 'Aa31sc136G70' => 'aar', 'Aa31sc210G20' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.13' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.3692' => 'aag', 'Actinidia01138' => 'ach', 'Actinidia05706' => 'ach', 'Actinidia06652' => 'ach', 'Actinidia09833' => 'ach', 'Actinidia22624' => 'ach', 'Actinidia23271' => 'ach', 'Actinidia23632' => 'ach', 'Ah.03g146740' => 'amhyb', 'Ah.05g167560' => 'amhyb', 'Ah.06g188510' => 'amhyb', 'Ah.06g189320' => 'amhyb', 'Ah.06g189330' => 'amhyb', 'Ah.11g043290' => 'amhyb', 'AL1G19420' => 'aly', 'AL1G65430' => 'aly', 'AL2G37310' => 'aly', 'AL3G31980' => 'aly', 'AL7G18230' => 'aly', 'Aqoxy2G03335' => 'aox', 'Aqoxy2G03336' => 'aox', 'Aqoxy5G02202' => 'aox', 'Aqoxy6G00270' => 'aox', 'Aqoxy6G01337' => 'aox', 'arahy.Tifrunner.gnm1.ann1.31N5UK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B572PV' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FFY9SF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G897EA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.JILU9Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.K0T0E2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N4CB9I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Q8KECQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.QNY1X4' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SQK8DJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XP046L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XWG10U' => 'arhy', 'AT1G08990' => 'ath', 'AT1G54940' => 'ath', 'AT1G77130' => 'ath', 'AT3G18660' => 'ath', 'AT4G33330' => 'ath', 'ATR0626G014' => 'atr', 'ATR0626G083' => 'atr', 'ATR0626G361' => 'atr', 'ATR0753G134' => 'atr', 'ATR1136G064' => 'atr', 'Atru.chr13.2270' => 'acertr', 'Atru.chr13.687' => 'acertr', 'Atru.chr2.418' => 'acertr', 'Atru.chr4.829' => 'acertr', 'AUR62000831' => 'cqu', 'AUR62000832' => 'cqu', 'AUR62003606' => 'cqu', 'AUR62005142' => 'cqu', 'AUR62005143' => 'cqu', 'AUR62013497' => 'cqu', 'AUR62013499' => 'cqu', 'AUR62017917' => 'cqu', 'AUR62022411' => 'cqu', 'AUR62026772' => 'cqu', 'AUR62026774' => 'cqu', 'AUR62026775' => 'cqu', 'AUR62026778' => 'cqu', 'AUR62026779' => 'cqu', 'AUR62042168' => 'cqu', 'AUR62044235' => 'cqu', 'BcaB03g12805' => 'bca', 'BcaB03g12814' => 'bca', 'BcaB03g13539' => 'bca', 'BcaB04g20758' => 'bca', 'BcaB05g25022' => 'bca', 'BcaB06g25917' => 'bca', 'BcaB07g31108' => 'bca', 'BcaB07g32145' => 'bca', 'BcaC01g00996' => 'bca', 'BcaC04g22034' => 'bca', 'BcaC05g26058' => 'bca', 'BcaC05g28585' => 'bca', 'BcaC07g38463' => 'bca', 'BcaC07g38466' => 'bca', 'BcaC07g38467' => 'bca', 'BcaC07g39104' => 'bca', 'BcaC07g41909' => 'bca', 'BcaC07g41910' => 'bca', 'BcaC07g41911' => 'bca', 'BcaC09g48823' => 'bca', 'BcaC09g52140' => 'bca', 'BcaC09g52147' => 'bca', 'BolC1t00512H' => 'bol', 'BolC1t04519H' => 'bol', 'BolC2t09459H' => 'bol', 'BolC3t20968H' => 'bol', 'BolC5t30731H' => 'bol', 'BolC5t33419H' => 'bol', 'BolC8t48879H' => 'bol', 'BolC8t49725H' => 'bol', 'BolC8t52499H' => 'bol', 'BolC9t55344H' => 'bol', 'BraA01t00474Z' => 'bra', 'BraA01t03659Z' => 'bra', 'BraA05t21938Z' => 'bra', 'BraA06t24848Z' => 'bra', 'BraA08t33718Z' => 'bra', 'BraA08t34826Z' => 'bra', 'BraA08t35398Z' => 'bra', 'BraA09t37544Z' => 'bra', 'BraA09t41907Z' => 'bra', 'C01p05320' => 'bna', 'C01p45570' => 'bna', 'C02p34290' => 'bna', 'C03p86730' => 'bna', 'C03p86740' => 'bna', 'C05p20390' => 'bna', 'C05p46880' => 'bna', 'C05p46890' => 'bna', 'C05p46910' => 'bna', 'C08p12380' => 'bna', 'C08p12390' => 'bna', 'C08p20860' => 'bna', 'C08p49710' => 'bna', 'C09p24270' => 'bna', 'CAN.G1034.6' => 'can', 'CAN.G1034.7' => 'can', 'CAN.G1034.8' => 'can', 'CAN.G1518.9' => 'can', 'CAN.G267.5' => 'can', 'CAN.G371.11' => 'can', 'CAN.G371.12' => 'can', 'CAN.G371.13' => 'can', 'CAN.G744.16' => 'can', 'CANSAT01G1643' => 'cansat', 'CANSAT25G1594' => 'cansat', 'CANSAT54G0920' => 'cansat', 'CARHR008890' => 'chi', 'CARHR070610' => 'chi', 'CARHR070620' => 'chi', 'CARHR094040' => 'chi', 'CARHR241380' => 'chi', 'CARHR283750' => 'chi', 'CARHR284480' => 'chi', 'Carub.0001s0831' => 'cru', 'Carub.0002s0840' => 'cru', 'Carub.0002s2402' => 'cru', 'Carub.0003s1844' => 'cru', 'Carub.0007s0715' => 'cru', 'Ca_09359_v3' => 'car', 'Ca_12661_v3' => 'car', 'Ca_13296_v3' => 'car', 'Ca_16930_v3' => 'car', 'Cc02_g33450' => 'ccan', 'Cc07_g18060' => 'ccan', 'Cc07_g18070' => 'ccan', 'Cc10_g04210' => 'ccan', 'Cc10_g14380' => 'ccan', 'Cc11_g03590' => 'ccan', 'CDE01G0079' => 'cde', 'CDE04G2870' => 'cde', 'CDE06G1334' => 'cde', 'CDE06G2605' => 'cde', 'CDE08G0207' => 'cde', 'Cfa002829' => 'cfa', 'Cfa006588' => 'cfa', 'Cfa018547' => 'cfa', 'Ciclev10000658m.g' => 'ccl', 'Ciclev10000664m.g' => 'ccl', 'Ciclev10003328m.g' => 'ccl', 'Ciclev10004021m.g' => 'ccl', 'Ciclev10025272m.g' => 'ccl', 'CiPaw.03G128500' => 'cil', 'CiPaw.04G086400' => 'cil', 'CiPaw.07G017400' => 'cil', 'CiPaw.15G057600' => 'cil', 'CiPaw.16G017500' => 'cil', 'CiPaw.16G044100' => 'cil', 'ClCG01G015520' => 'cla', 'ClCG02G015830' => 'cla', 'ClCG08G006470' => 'cla', 'ClCG08G015920' => 'cla', 'COL.COLO4_07955' => 'col', 'COL.COLO4_13477' => 'col', 'COL.COLO4_14018' => 'col', 'COL.COLO4_26502' => 'col', 'Cpa.g.sc42.119' => 'cpa', 'Cpa.g.sc42.120' => 'cpa', 'Cpa.g.sc48.45' => 'cpa', 'Cpa.g.sc49.12' => 'cpa', 'Cpa.g.sc49.61' => 'cpa', 'CsaV3_2G005230' => 'csa', 'CsaV3_2G027830' => 'csa', 'CsaV3_6G030950' => 'csa', 'CsaV3_6G041760' => 'csa', 'CSS0002304' => 'camsi', 'CSS0003896' => 'camsi', 'CSS0004537' => 'camsi', 'CSS0009023' => 'camsi', 'CSS0010259' => 'camsi', 'CSS0010912' => 'camsi', 'CSS0014243' => 'camsi', 'CSS0015482' => 'camsi', 'CSS0017938' => 'camsi', 'CSS0027644' => 'camsi', 'CSS0036433' => 'camsi', 'CSS0038012' => 'camsi', 'CSS0047078' => 'camsi', 'DCAR_012772' => 'dca', 'Dinv03735' => 'din', 'Dinv03736' => 'din', 'Dinv23944' => 'din', 'Dinv35966' => 'din', 'Dinv39320' => 'din', 'Dinv41119' => 'din', 'Duzib041G0531' => 'dzi', 'Duzib041G0532' => 'dzi', 'Duzib093G1619' => 'dzi', 'Duzib106G0701' => 'dzi', 'Duzib116G0745' => 'dzi', 'Duzib128G1729' => 'dzi', 'Duzib187G0361' => 'dzi', 'ECA232G1363' => 'eca', 'ECA246G0059' => 'eca', 'ECA246G2398' => 'eca', 'ECA246G3686' => 'eca', 'EL10Ac1g01477' => 'bvu', 'EL10Ac1g01730' => 'bvu', 'EL10Ac4g09348' => 'bvu', 'EL10Ac6g15272' => 'bvu', 'Eucgr.F00232' => 'egr', 'Eucgr.F02737' => 'egr', 'Eucgr.F04263' => 'egr', 'Eucgr.H04942' => 'egr', 'Eucgr.L01540' => 'egr', 'FAN02G2686' => 'fan', 'FAN05G5288' => 'fan', 'FAN05G5396' => 'fan', 'FAN09G2624' => 'fan', 'FAN14G1563' => 'fan', 'FAN14G3805' => 'fan', 'FAN15G1507' => 'fan', 'FAN15G2707' => 'fan', 'FAN18G0694' => 'fan', 'FAN19G0679' => 'fan', 'FAN20G0454' => 'fan', 'FAN20G1572' => 'fan', 'FAN23G1522' => 'fan', 'FAN24G3233' => 'fan', 'FAN26G0395' => 'fan', 'FAN27G2101' => 'fan', 'FAN27G3256' => 'fan', 'FvH4_1g24050' => 'fve', 'FvH4_2g14610' => 'fve', 'FvH4_2g34480' => 'fve', 'FvH4_6g05790' => 'fve', 'Glyma.02G238200' => 'gma', 'Glyma.04G038500' => 'gma', 'Glyma.04G214400' => 'gma', 'Glyma.05G060701' => 'gma', 'Glyma.05G190200' => 'gma', 'Glyma.06G151900' => 'gma', 'Glyma.08G147800' => 'gma', 'Glyma.10G154600' => 'gma', 'Glyma.14G082500' => 'gma', 'Glyma.14G122600' => 'gma', 'Glyma.17G242500' => 'gma', 'Glyma.19G235600' => 'gma', 'Gohir.A05G202000' => 'ghi', 'Gohir.A05G269700' => 'ghi', 'Gohir.A06G018400' => 'ghi', 'Gohir.A10G082400' => 'ghi', 'Gohir.A11G056000' => 'ghi', 'Gohir.A11G264600' => 'ghi', 'Gohir.A13G107400' => 'ghi', 'Gohir.D03G061300' => 'ghi', 'Gohir.D05G205100' => 'ghi', 'Gohir.D06G016600' => 'ghi', 'Gohir.D10G106400' => 'ghi', 'Gohir.D11G060100' => 'ghi', 'Gohir.D11G274800' => 'ghi', 'Gohir.D13G110600' => 'ghi', 'Gorai.007G064800' => 'gra', 'Gorai.007G296600' => 'gra', 'Gorai.009G211400' => 'gra', 'Gorai.009G284700' => 'gra', 'Gorai.010G019500' => 'gra', 'Gorai.011G116600' => 'gra', 'Gorai.013G105100' => 'gra', 'Gorai.013G123900' => 'gra', 'GSVIVG01000046001' => 'vvi', 'GSVIVG01009501001' => 'vvi', 'GSVIVG01010036001' => 'vvi', 'GSVIVG01026525001' => 'vvi', 'HanXRQChr04g0109381' => 'han', 'HanXRQChr05g0150921' => 'han', 'HanXRQChr05g0161151' => 'han', 'HanXRQChr13g0409751' => 'han', 'Haze_04200' => 'cav', 'Haze_17529' => 'cav', 'Haze_17714' => 'cav', 'Haze_25126' => 'cav', 'Hma1.2p1_2049F.1_g312470' => 'hma', 'HPP92_009369' => 'vpl', 'HPP92_009370' => 'vpl', 'HPP92_019424' => 'vpl', 'HPP92_019425' => 'vpl', 'HPP92_019443' => 'vpl', 'HPP92_026232' => 'vpl', 'HPP92_026233' => 'vpl', 'Hund04475' => 'sun', 'Hund07067' => 'sun', 'Hund17399' => 'sun', 'Hund17570' => 'sun', 'Lalb_Chr04g0260771' => 'lal', 'Lalb_Chr04g0260781' => 'lal', 'Lalb_Chr04g0263641' => 'lal', 'Lalb_Chr08g0238471' => 'lal', 'Lalb_Chr14g0368721' => 'lal', 'Lalb_Chr15g0077191' => 'lal', 'Lalb_Chr15g0077201' => 'lal', 'Lalb_Chr18g0045601' => 'lal', 'Lalb_Chr18g0045611' => 'lal', 'Lalb_Chr18g0045621' => 'lal', 'Lalb_Chr23g0267141' => 'lal', 'Lj1g0003390' => 'lja', 'Lj1g0020246' => 'lja', 'Lj1g0023850' => 'lja', 'Lj1g0028168' => 'lja', 'Lj4A55T43' => 'lonja', 'Lj4A691T77' => 'lonja', 'Lj4A849G55' => 'lonja', 'Lj5C535T7' => 'lonja', 'Lj5g0013827' => 'lja', 'Lj5g0023438' => 'lja', 'Lj7A365G40' => 'lonja', 'Lj9C33T6' => 'lonja', 'Lsat_1_v5_gn_3_106960' => 'lsa', 'Lsat_1_v5_gn_4_125900' => 'lsa', 'Lsat_1_v5_gn_6_112121' => 'lsa', 'Lsat_1_v5_gn_6_96520' => 'lsa', 'Lsat_1_v5_gn_9_83280' => 'lsa', 'Manes.05G173600' => 'mes', 'Manes.08G121000' => 'mes', 'Manes.09G166700' => 'mes', 'Manes.12G153100' => 'mes', 'Manes.18G036700' => 'mes', 'Manes.18G087900' => 'mes', 'Mapoly0120s0025' => 'mpo', 'MBI02_g02988_MAGBIO' => 'mbi', 'MBI03_g11316_MAGBIO' => 'mbi', 'MBI06_g18868_MAGBIO' => 'mbi', 'MBI06_g18869_MAGBIO' => 'mbi', 'MBI14_g38618_MAGBIO' => 'mbi', 'MBI17_g12507_MAGBIO' => 'mbi', 'MBI17_g39086_MAGBIO' => 'mbi', 'MBI18_g26692_MAGBIO' => 'mbi', 'MD04G1205600' => 'mdo', 'MD05G1016200' => 'mdo', 'MD05G1016400' => 'mdo', 'MD08G1102200' => 'mdo', 'MD08G1102300' => 'mdo', 'MD10G1015800' => 'mdo', 'MD10G1015900' => 'mdo', 'MD12G1114500' => 'mdo', 'MD12G1219700' => 'mdo', 'MD15G1083700' => 'mdo', 'Medtr1g019530' => 'mtr', 'Medtr1g019540' => 'mtr', 'Medtr1g029130' => 'mtr', 'Medtr1g082880' => 'mtr', 'Medtr3g095910' => 'mtr', 'Medtr7g113610' => 'mtr', 'MELO3C004270.2' => 'cme', 'MELO3C008045.2' => 'cme', 'MELO3C008407.2' => 'cme', 'MELO3C010862.2' => 'cme', 'Migut.C00584' => 'egut', 'Migut.H00742' => 'egut', 'Migut.J01680' => 'egut', 'Migut.L00898' => 'egut', 'Migut.L01838' => 'egut', 'Migut.N03074' => 'egut', 'Migut.O00854' => 'egut', 'MSTRG.24330' => 'ama', 'MSTRG.3604' => 'ama', 'Nitab4.5_0000137g0360' => 'nta', 'Nitab4.5_0000137g0370' => 'nta', 'Nitab4.5_0000287g0360' => 'nta', 'Nitab4.5_0000287g0380' => 'nta', 'Nitab4.5_0000299g0120' => 'nta', 'Nitab4.5_0001580g0050' => 'nta', 'Nitab4.5_0003091g0070' => 'nta', 'Nitab4.5_0003093g0030' => 'nta', 'Nitab4.5_0003427g0060' => 'nta', 'Nitab4.5_0003427g0070' => 'nta', 'Nitab4.5_0004395g0060' => 'nta', 'Nitab4.5_0005978g0010' => 'nta', 'Nitab4.5_0009751g0010' => 'nta', 'Nn1g02231' => 'nnu', 'Nn1g04881' => 'nnu', 'Nn1g06199' => 'nnu', 'Nn5g28633' => 'nnu', 'Nn5g30334' => 'nnu', 'Nn7g37975' => 'nnu', 'Oeu029696.1' => 'oeu', 'Oeu040444.1' => 'oeu', 'Oeu044122.1' => 'oeu', 'Oeu044127.1' => 'oeu', 'Oeu046005.1' => 'oeu', 'Oeu047680.1' => 'oeu', 'Oeu057284.1' => 'oeu', 'Os01g0880200' => 'osa', 'Os02g0556000' => 'osa', 'Os05g0426400' => 'osa', 'Peaxi162Scf00012g01813' => 'pax', 'Peaxi162Scf00037g00330' => 'pax', 'Peaxi162Scf00252g00921' => 'pax', 'Peaxi162Scf00252g00922' => 'pax', 'Peaxi162Scf00263g00418' => 'pax', 'Peaxi162Scf00303g01112' => 'pax', 'PGR002G0005' => 'pgr', 'PGR042G1659' => 'pgr', 'PGR044G2138' => 'pgr', 'PGR083G2309' => 'pgr', 'PGR102G2232' => 'pgr', 'PGSC0003DMG400008015' => 'stu', 'PGSC0003DMG400008016' => 'stu', 'PGSC0003DMG400018996' => 'stu', 'PGSC0003DMG400018997' => 'stu', 'PGSC0003DMG400024800' => 'stu', 'Phvul.001G021800' => 'pvu', 'Phvul.001G073100' => 'pvu', 'Phvul.002G270800' => 'pvu', 'Phvul.006G092200' => 'pvu', 'Phvul.009G064700' => 'pvu', 'Phvul.009G148800' => 'pvu', 'Potri.005G033500' => 'ptr', 'Potri.005G061600' => 'ptr', 'Potri.005G187900' => 'ptr', 'Potri.007G107200' => 'ptr', 'Potri.013G022900' => 'ptr', 'Potri.014G029900' => 'ptr', 'Pp3c13_20430' => 'ppa', 'Pp3c1_28970' => 'ppa', 'Pp3c3_26470' => 'ppa', 'Prupe.1G436200' => 'ppe', 'Prupe.6G326400' => 'ppe', 'Prupe.8G019500' => 'ppe', 'Prupe.8G019600' => 'ppe', 'Psat3g010760' => 'psa', 'Psat3g010800' => 'psa', 'Psat3g010880' => 'psa', 'Psat5g056920' => 'psa', 'Psat6g013280' => 'psa', 'Psat6g039920' => 'psa', 'PSO170G3304' => 'pso', 'PSO210G6352' => 'pso', 'PSO302G0022' => 'pso', 'PSO407G0233' => 'pso', 'PSO541G5055' => 'pso', 'PSO541G5842' => 'pso', 'PSO675G0061' => 'pso', 'PSO675G4990' => 'pso', 'PSO832G0637' => 'pso', 'QL02p004916' => 'qlo', 'QL02p005015' => 'qlo', 'QL02p025265' => 'qlo', 'QL03p002387' => 'qlo', 'QL03p006952' => 'qlo', 'QL03p006960' => 'qlo', 'QL03p006964' => 'qlo', 'QL06p029452' => 'qlo', 'QL06p029466' => 'qlo', 'RcHm_v2.0_Chr2g0120261' => 'rch', 'RcHm_v2.0_Chr3g0454711' => 'rch', 'RcHm_v2.0_Chr6g0277081' => 'rch', 'RcHm_v2.0_Chr6g0307861' => 'rch', 'Rhsim06G0049400' => 'rsi', 'Rhsim10G0136900' => 'rsi', 'Rhsim10G0137000' => 'rsi', 'Rhsim11G0078700' => 'rsi', 'Sabra05G0035600' => 'sbr', 'Sabra05G0051800' => 'sbr', 'Sabra05G0143500' => 'sbr', 'Sabra07G0087700' => 'sbr', 'Sabra13G0024900' => 'sbr', 'Sabra14G0020700' => 'sbr', 'SalBow1G3850' => 'sbo', 'SalBow5G0704' => 'sbo', 'SalBow5G3194' => 'sbo', 'SalBow5G5033' => 'sbo', 'SalBow6G1235' => 'sbo', 'SalBow6G7008' => 'sbo', 'SalBow7G0449' => 'sbo', 'SalBow7G1593' => 'sbo', 'Sc06g0003390' => 'sci', 'Sc16g0003930' => 'sci', 'Sc26g0002720' => 'sci', 'Sc26g0004030' => 'sci', 'Sc26g0004040' => 'sci', 'Sed0013655' => 'sed', 'Sed0013998' => 'sed', 'Sed0016220' => 'sed', 'Sed0019034' => 'sed', 'SEGI_05954' => 'sgi', 'SEGI_40680' => 'sgi', 'SGA_v2.0_scaffold105G30327' => 'sas', 'SGA_v2.0_scaffold132G34560' => 'sas', 'SGA_v2.0_scaffold172G38968' => 'sas', 'SGA_v2.0_scaffold184G40034' => 'sas', 'SGA_v2.0_scaffold19G08831' => 'sas', 'SGA_v2.0_scaffold25G10995' => 'sas', 'SGA_v2.0_scaffold330G48885' => 'sas', 'SGA_v2.0_scaffold355G49779' => 'sas', 'SHI08277' => 'shi', 'SHI09298' => 'shi', 'SMO365G0065' => 'smo', 'SMO367G0405' => 'smo', 'SMO367G0841' => 'smo', 'Solyc01g098960.3' => 'sly', 'Solyc01g098970.3' => 'sly', 'Solyc04g064790.3' => 'sly', 'Solyc04g078980.4' => 'sly', 'Solyc04g078990.4' => 'sly', 'Solyc11g005760.3' => 'sly', 'Sopen01g042490' => 'spe', 'Sopen01g042500' => 'spe', 'Sopen04g026750' => 'spe', 'Sopen04g032560' => 'spe', 'Sopen04g032570' => 'spe', 'Sopen11g001720' => 'spe', 'Sp1g07600' => 'spa', 'Sp1g19020' => 'spa', 'Sp3g16730' => 'spa', 'Sp5g32270' => 'spa', 'Sp7g31040' => 'spa', 'SpUn0002_0710' => 'spa', 'TAR362G0396' => 'tar', 'TAR362G0892' => 'tar', 'TAR362G1187' => 'tar', 'TAR381G1679' => 'tar', 'TAR628G1051' => 'tar', 'TAR628G1690' => 'tar', 'THA.LOC104803680' => 'tha', 'THA.LOC104813691' => 'tha', 'THA.LOC104820887' => 'tha', 'THA.LOC104821177' => 'tha', 'Thecc.01G127200' => 'tca', 'Thecc.05G304000' => 'tca', 'Thecc.05G304100' => 'tca', 'Thecc.08G008300' => 'tca', 'Thecc.08G145100' => 'tca', 'Thhalv10007050m.g' => 'esa', 'Thhalv10007230m.g' => 'esa', 'Thhalv10020243m.g' => 'esa', 'Thhalv10024070m.g' => 'esa', 'Thhalv10024741m.g' => 'esa', 'TPR.G33169' => 'tpr', 'TPR.G33322' => 'tpr', 'TPR.G34647' => 'tpr', 'TPR.G35934' => 'tpr', 'TPR.G3760' => 'tpr', 'TPR.G6089' => 'tpr', 'TWI12G0074' => 'twi', 'TWI34G1173' => 'twi', 'TWI36G0335' => 'twi', 'TWI36G1085' => 'twi', 'TWI56G0350' => 'twi', 'TWI75G0556' => 'twi', 'TWI75G1228' => 'twi', 'TWI79G1471' => 'twi', 'unitig_21.g20575' => 'ugi', 'unitig_22.g6062' => 'ugi', 'unitig_578.g16532' => 'ugi', 'unitig_62.g23759' => 'ugi', 'unitig_62.g23760' => 'ugi', 'unitig_747.g21807' => 'ugi', 'unitig_899.g14703' => 'ugi', 'unitig_899.g14704' => 'ugi', 'vmacro05053' => 'vma', 'vmacro12859' => 'vma', 'vmacro12860' => 'vma', 'vmacro21526' => 'vma', 'vmacro23309' => 'vma', 'VMungo0251G1920' => 'vmu', 'VMungo0540G2445' => 'vmu', 'VMungo0647G1173' => 'vmu', 'VMungo0647G2447' => 'vmu', 'VMungo1309G0365' => 'vmu', 'VMungo1309G1491' => 'vmu', 'Zm00001eb006350' => 'zma', 'Zm00001eb145810' => 'zma', 'Zm00001eb147590' => 'zma', 'Zm00001eb243640' => 'zma', 'Zm00001eb288440' => 'zma', 'Zm00001eb366250' => 'zma' ) $gf_id = 'HOM05D000987' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D000987' ) $data_identifier = 'HOM05D000987' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 24, 'aar' => (int) 6, 'aag' => (int) 2, 'ach' => (int) 7, 'amhyb' => (int) 6, 'aly' => (int) 5, 'aox' => (int) 5, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 5, 'acertr' => (int) 4, 'cqu' => (int) 16, 'bca' => (int) 22, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 7, 'cru' => (int) 5, 'car' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 3, 'ccl' => (int) 5, 'cil' => (int) 6, 'cla' => (int) 4, 'col' => (int) 4, 'cpa' => (int) 5, 'csa' => (int) 4, 'camsi' => (int) 13, 'dca' => (int) 1, 'din' => (int) 6, 'dzi' => (int) 7, 'eca' => (int) 4, 'bvu' => (int) 4, 'egr' => (int) 5, 'fan' => (int) 17, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 14, 'gra' => (int) 8, 'vvi' => (int) 4, 'han' => (int) 4, 'cav' => (int) 4, 'hma' => (int) 1, 'vpl' => (int) 7, 'sun' => (int) 4, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 5, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 8, 'mdo' => (int) 10, 'mtr' => (int) 6, 'cme' => (int) 4, 'egut' => (int) 7, 'ama' => (int) 2, 'nta' => (int) 13, 'nnu' => (int) 6, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 6, 'ptr' => (int) 6, 'ppa' => (int) 3, 'ppe' => (int) 4, 'psa' => (int) 6, 'pso' => (int) 9, 'qlo' => (int) 9, 'rch' => (int) 4, 'rsi' => (int) 4, 'sbr' => (int) 6, 'sbo' => (int) 8, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 2, 'sas' => (int) 8, 'shi' => (int) 2, 'smo' => (int) 3, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 6, 'tar' => (int) 6, 'tha' => (int) 4, 'tca' => (int) 5, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 8, 'ugi' => (int) 8, 'vma' => (int) 5, 'vmu' => (int) 6, 'zma' => (int) 6 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb366250' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1